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Read clouds uncover variation in complex regions of the human genome

  • Alex Bishara
  • Yuling Liu
  • Ziming Weng
  • Dorna Kashef-Haghighi
  • Daniel E. Newburger
  • Robert West
  • Arend Sidow
  • Serafim Batzoglou
  • First Published August 18, 2015

Parente2: a fast and accurate method for detecting identity by descent

  • Jesse M. Rodriguez
  • Sivan Bercovici
  • Lin Huang
  • Roy Frostig
  • Serafim Batzoglou
  • First Published October 1, 2014

Quantifying ChIP-seq data: a spiking method providing an internal reference for sample-to-sample normalization

  • Nicolas Bonhoure
  • Gergana Bounova
  • David Bernasconi
  • Viviane Praz
  • Fabienne Lammers
  • Donatella Canella Ian M. Willis Winship Herr Nouria Hernandez Mauro Delorenzi Nouria Hernandez Mauro Delorenzi Bart Deplancke Béatrice Desvergne Nicolas Guex Winship Herr Felix Naef Jacques Rougemont Ueli Schibler Teemu Andersin Pascal Cousin Federica Gilardi Pascal Gos Fabienne Lammers Sunil Raghav Dominic Villeneuve Roberto Fabbretti Volker Vlegel Ioannis Xenarios Eugenia Migliavacca Viviane Praz Fabrice David Yohan Jarosz Dmitry Kuznetsov Robin Liechti Olivier Martin Julien Delafontaine Julia Cajan Kyle Gustafson Irina Krier Marion Leleu Nacho Molina
  • ... [+37 authors] ...,
  • Aurélien Naldi
  • Leonor Rib
  • Laura Symul
  • Gergana Bounova
  • First Published April 7, 2014

Genome evolution during progression to breast cancer

  • Daniel E. Newburger
  • Dorna Kashef-Haghighi
  • Ziming Weng
  • Raheleh Salari
  • Robert T. Sweeney
  • Alayne L. Brunner Shirley X. Zhu Xiangqian Guo Sushama Varma
  • ... [+4 authors] ...,
  • Megan L. Troxell
  • Robert B. West
  • Serafim Batzoglou
  • Arend Sidow
  • First Published April 8, 2013

Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements

  • Anshul Kundaje
  • Sofia Kyriazopoulou-Panagiotopoulou
  • Max Libbrecht
  • Cheryl L. Smith
  • Debasish Raha
  • Elliott E. Winters
  • ... [+1 authors] ...,
  • Steven M. Johnson
  • Michael Snyder
  • Serafim Batzoglou
  • Arend Sidow
  • First Published September 5, 2012

Linking disease associations with regulatory information in the human genome

  • Marc A. Schaub
  • Alan P. Boyle
  • Anshul Kundaje
  • Serafim Batzoglou
  • Michael Snyder
  • First Published September 5, 2012

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

  • Stephen G. Landt
  • Georgi K. Marinov
  • Anshul Kundaje
  • Pouya Kheradpour
  • Florencia Pauli
  • Serafim Batzoglou Bradley E. Bernstein Peter Bickel James B. Brown Philip Cayting Yiwen Chen Gilberto DeSalvo Charles Epstein Katherine I. Fisher-Aylor Ghia Euskirchen Mark Gerstein Jason Gertz Alexander J. Hartemink Michael M. Hoffman Vishwanath R. Iyer Youngsook L. Jung Subhradip Karmakar Manolis Kellis Peter V. Kharchenko Qunhua Li Tao Liu X. Shirley Liu Lijia Ma Aleksandar Milosavljevic Richard M. Myers Peter J. Park Michael J. Pazin Marc D. Perry Debasish Raha Timothy E. Reddy Joel Rozowsky Noam Shoresh Arend Sidow Matthew Slattery John A. Stamatoyannopoulos Michael Y. Tolstorukov Kevin P. White Simon Xi
  • ... [+38 authors] ...,
  • Peggy J. Farnham
  • Jason D. Lieb
  • Barbara J. Wold
  • Michael Snyder
  • First Published September 5, 2012

A multiplicity of factors contributes to selective RNA polymerase III occupancy of a subset of RNA polymerase III genes in mouse liver

  • Donatella Canella
  • David Bernasconi
  • Federica Gilardi
  • Gwendal LeMartelot
  • Eugenia Migliavacca
  • Viviane Praz Pascal Cousin Mauro Delorenzi Nouria Hernandez Nouria Hernandez Mauro Delorenzi Bart Deplancke Béatrice Desvergne Nicolas Guex Winship Herr Felix Naef Jacques Rougemont Ueli Schibler Bart Deplancke Nicolas Guex Winship Herr Nicolas Guex Teemu Andersin Pascal Cousin Federica Gilardi Pascal Gos Gwendal Le Martelot Fabienne Lammers Donatella Canella Federica Gilardi Sunil Raghav Roberto Fabbretti Arnaud Fortier Li Long Volker Vlegel Ioannis Xenarios Eugenia Migliavacca Viviane Praz Nicolas Guex Felix Naef Jacques Rougemont Fabrice David Yohan Jarosz Dmitry Kuznetsov Robin Liechti Olivier Martin Frederick Ross Lucas Sinclair Julia Cajan Irina Krier Marion Leleu Eugenia Migliavacca Nacho Molina Aurélien Naldi Guillaume Rey Laura Symul Nicolas Guex Felix Naef Jacques Rougemont David Bernasconi Mauro Delorenzi Teemu Andersin Donatella Canella
  • ... [+58 authors] ...,
  • Federica Gilardi
  • Gwendal Le Martelot
  • Fabienne Lammers
  • Sunil Raghav
  • First Published January 27, 2012

Defining the RNA polymerase III transcriptome: Genome-wide localization of the RNA polymerase III transcription machinery in human cells

  • Donatella Canella
  • Viviane Praz
  • Jaime H. Reina
  • Pascal Cousin
  • Nouria Hernandez
  • First Published April 22, 2010

Evolutionary constraint facilitates interpretation of genetic variation in resequenced human genomes

  • David L. Goode
  • Gregory M. Cooper
  • Jeremy Schmutz
  • Mark Dickson
  • Eidelyn Gonzales
  • Ming Tsai Kalpana Karra
  • ... [+2 authors] ...,
  • Eugene Davydov
  • Serafim Batzoglou
  • Richard M. Myers
  • Arend Sidow
  • First Published January 12, 2010
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